Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

143

Sequences:

850

Seq/Len:

5.94

HH_delta:

0.945 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

123_S

131_K

0.35905

2.538

98_K

140_E

0.34679

2.451

13_R

19_K

0.33662

2.379

84_L

129_L

0.3257

2.302

11_N

18_H

0.31953

2.258

97_L

127_A

0.31024

2.193

2_L

130_L

0.30554

2.159

128_E

132_E

0.3048

2.154

8_L

34_I

0.29946

2.116

52_I

72_V

0.29486

2.084

87_L

92_I

0.27548

1.947

28_L

34_I

0.2673

1.889

107_E

123_S

0.26328

1.861

56_G

61_I

0.26151

1.848

129_L

133_E

0.26056

1.842

50_P

67_P

0.25717

1.818

97_L

130_L

0.25529

1.804

82_K

85_E

0.25515

1.803

99_S

139_I

0.25231

1.783

41_V

47_V

0.24967

1.765

112_D

116_S

0.24933

1.762

65_D

70_R

0.22306

1.576

8_L

36_P

0.22205

1.569

62_R

71_D

0.21918

1.549

106_V

131_K

0.21631

1.529

94_G

138_P

0.21551

1.523

43_A

79_G

0.21538

1.522

50_P

66_T

0.21351

1.509

78_E

82_K

0.21217

1.500

2_L

95_F

0.20842

1.473

76_L

79_G

0.19977

1.412

129_L

132_E

0.19328

1.366

100_K

119_L

0.19022

1.344

57_E

61_I

0.18654

1.318

84_L

133_E

0.18645

1.318

57_E

77_L

0.18613

1.315

21_D

24_V

0.18156

1.283

50_P

65_D

0.17943

1.268

52_I

63_V

0.17575

1.242

105_G

109_T

0.17422

1.231

74_E

78_E

0.17106

1.209

85_E

133_E

0.16958

1.199

53_R

115_F

0.16693

1.180

45_L

75_E

0.16648

1.177

88_K

133_E

0.16428

1.161

13_R

18_H

0.15967

1.128

26_E

30_E

0.15845

1.120

98_K

142_E

0.1576

1.114

95_F

135_P

0.15625

1.104

31_Y

34_I

0.15524

1.097

5_A

9_G

0.15477

1.094

83_Q

130_L

0.15423

1.090

99_S

106_V

0.15265

1.079

5_A

10_E

0.14992

1.060

108_R

121_K

0.14803

1.046

13_R

17_G

0.14744

1.042

106_V

139_I

0.14542

1.028

84_L

134_G

0.1449

1.024

53_R

113_G

0.14459

1.022

112_D

117_G

0.14383

1.017

37_V

42_L

0.14338

1.013

3_V

24_V

0.14272

1.009

57_E

128_E

0.14265

1.008

8_L

28_L

0.14245

1.007

63_V

66_T

0.14209

1.004

55_V

64_I

0.14203

1.004

91_G

107_E

0.13978

0.988

45_L

72_V

0.13919

0.984

2_L

92_I

0.13913

0.983

23_F

32_V

0.13804

0.976

97_L

104_C

0.13446

0.950

106_V

123_S

0.13361

0.944

76_L

103_S

0.13334

0.942

61_I

128_E

0.13147

0.929

10_E

41_V

0.13134

0.928

27_L

30_E

0.13045

0.922

81_E

85_E

0.12946

0.915

138_P

142_E

0.12877

0.910

7_L

45_L

0.12829

0.907

134_G

137_L

0.12803

0.905

1_I

34_I

0.12721

0.899

35_I

56_G

0.12669

0.895

82_K

86_E

0.1255

0.887

32_V

46_G

0.1254

0.886

70_R

75_E

0.12467

0.881

63_V

86_E

0.1244

0.879

7_L

103_S

0.12396

0.876

63_V

69_G

0.12362

0.874

54_L

125_I

0.12348

0.873

95_F

126_F

0.12332

0.872

94_G

136_K

0.12305

0.870

11_N

20_R

0.12019

0.849

121_K

132_E

0.12002

0.848

85_E

88_K

0.11976

0.846

22_E

26_E

0.11917

0.842

87_L

95_F

0.11896

0.841

107_E

141_E

0.11827

0.836

62_R

74_E

0.11789

0.833

17_G

100_K

0.11783

0.833

7_L

16_G

0.11723

0.829

54_L

128_E

0.11704

0.827

83_Q

126_F

0.11691

0.826

22_E

25_K

0.11659

0.824

14_Y

48_P

0.11602

0.820

75_E

100_K

0.1158

0.818

54_L

61_I

0.11573

0.818

53_R

63_V

0.11559

0.817

81_E

129_L

0.11475

0.811

28_L

31_Y

0.11388

0.805

106_V

137_L

0.11365

0.803

27_L

34_I

0.11365

0.803

77_L

81_E

0.11352

0.802

22_E

121_K

0.1124

0.794

63_V

115_F

0.11217

0.793

34_I

92_I

0.1118

0.790

53_R

112_D

0.11174

0.790

74_E

121_K

0.11138

0.787

95_F

130_L

0.11056

0.781

79_G

103_S

0.11036

0.780

109_T

120_G

0.10994

0.777

109_T

123_S

0.10984

0.776

134_G

142_E

0.1096

0.775

85_E

118_E

0.10948

0.774

9_G

115_F

0.10946

0.774

51_P

66_T

0.10905

0.771

35_I

116_S

0.10846

0.767

80_A

83_Q

0.10813

0.764

136_K

142_E

0.10812

0.764

99_S

141_E

0.10773

0.761

123_S

139_I

0.10737

0.759

12_C

100_K

0.10713

0.757

103_S

126_F

0.10712

0.757

25_K

29_K

0.10698

0.756

61_I

77_L

0.10681

0.755

18_H

138_P

0.10652

0.753

50_P

74_E

0.10635

0.752

42_L

96_I

0.10587

0.748

24_V

84_L

0.10565

0.747

22_E

132_E

0.10548

0.745

114_N

118_E

0.10542

0.745

2_L

87_L

0.10328

0.730

117_G

122_G

0.1031

0.729

80_A

87_L

0.10284

0.727

100_K

108_R

0.10254

0.725

5_A

142_E

0.10248

0.724

20_R

25_K

0.10209

0.722

131_K

139_I

0.10208

0.721

14_Y

127_A

0.10148

0.717

46_G

50_P

0.1012

0.715

37_V

79_G

0.10109

0.714

74_E

81_E

0.10093

0.713

1_I

131_K

0.10063

0.711

80_A

134_G

0.10033

0.709

87_L

126_F

0.09984

0.706

28_L

32_V

0.09982

0.705

99_S

142_E

0.09947

0.703

28_L

138_P

0.09944

0.703

52_I

65_D

0.09941

0.703

10_E

70_R

0.09924

0.701

23_F

94_G

0.09924

0.701

79_G

129_L

0.09899

0.700

92_I

95_F

0.09861

0.697

125_I

129_L

0.09804

0.693

1_I

96_I

0.09757

0.690

24_V

28_L

0.09731

0.688

80_A

103_S

0.0973

0.688

47_V

71_D

0.09721

0.687

9_G

48_P

0.09711

0.686

95_F

125_I

0.09705

0.686

67_P

70_R

0.09692

0.685

67_P

74_E

0.09667

0.683

119_L

132_E

0.09596

0.678

126_F

138_P

0.09595

0.678

62_R

76_L

0.09583

0.677

46_G

64_I

0.09575

0.677

2_L

126_F

0.0957

0.676

99_S

140_E

0.09546

0.675

64_I

72_V

0.09517

0.673

54_L

109_T

0.09516

0.673

104_C

130_L

0.0946

0.669

43_A

72_V

0.09412

0.665

25_K

28_L

0.09395

0.664

12_C

41_V

0.0937

0.662

41_V

44_G

0.09366

0.662

3_V

71_D

0.09356

0.661

56_G

128_E

0.09344

0.660

56_G

78_E

0.09325

0.659

52_I

111_Y

0.09319

0.659

31_Y

93_D

0.09312

0.658

15_D

18_H

0.09305

0.658

15_D

19_K

0.09284

0.656

36_P

82_K

0.09274

0.655

8_L

12_C

0.09255

0.654

80_A

129_L

0.09216

0.651

46_G

52_I

0.09194

0.650

28_L

94_G

0.0918

0.649

19_K

47_V

0.09083

0.642

69_G

125_I

0.09063

0.641

47_V

62_R

0.09062

0.640

96_I

140_E

0.09054

0.640

27_L

100_K

0.08988

0.635

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)